ArticleGigaScience2016
Gigwa-Genotype investigator for genome-wide analyses.
Article in GigaScience, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 13 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
13 citing papers in PubMed.
- Article
- The groundnut improvement network for Africa (GINA) germplasm collection: a unique genetic resource for breeding and gene discovery.G3 (Bethesda, Md.) · 2023Article
- Unravelling the complex story of intergenomic recombination in ABB allotriploid bananas.Annals of botany · 2021Article
- Article
- BrAPI-an application programming interface for plant breeding applications.Bioinformatics (Oxford, England) · 2019Article
- Rice Galaxy: an open resource for plant science.GigaScience · 2019Article
- Gigwa v2-Extended and improved genotype investigator.GigaScience · 2019Article
- Benchmarking database systems for Genomic Selection implementation.Database : the journal of biological databases and curation · 2019Article
- Bioinformatics Workflows With NoSQL Database in Cloud Computing.Evolutionary bioinformatics online · 2019Article
- MGIS: managing banana (Musa spp.) genetic resources information and high-throughput genotyping data.Database : the journal of biological databases and curation · 2017Article
- Erratum to: Gigwa-Genotype investigator for genome-wide analyses.GigaScience · 2016Article
- Gigwa-Genotype investigator for genome-wide analyses.GigaScience · 2016Article
- SNiPlay3: a web-based application for exploration and large scale analyses of genomic variations.Nucleic acids research · 2015Article
Corrections and comments
- Erratum issued
Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundExploring the structure of genomes and analyzing their evolution is essential to understanding the ecological adaptation of organisms. However, with the large amounts of data being produced by next-generation sequencing, computational challenges arise in terms of storage, search, sharing, analysis and visualization. This is particularly true with regards to studies of genomic variation, which are currently lacking scalable and user-friendly data exploration solutions. DESCRIPTION: Here we present Gigwa, a web-based tool that provides an easy and intuitive way to explore large amounts of genotyping data by filtering it not only on the basis of variant features, including functional annotations, but also on genotype patterns. The data storage relies on MongoDB, which offers good scalability properties. Gigwa can handle multiple databases and may be deployed in either single- or multi-user mode. In addition, it provides a wide range of popular export formats.
conclusionsThe Gigwa application is suitable for managing large amounts of genomic variation data. Its user-friendly web interface makes such processing widely accessible. It can either be simply deployed on a workstation or be used to provide a shared data portal for a given community of researchers.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.